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Showing :
genesetenrichment
•
reset
1
vote
2
replies
139
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
19 days ago
Ana
• 0
0
votes
2
replies
183
views
How to make GSEAplot with chip set
geneset
GeneSetEnrichment
msigdb
4 weeks ago
Seongsu
• 0
4
votes
4
replies
3.7k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler
GO
GO enrichment
genesetenrichment
updated 6 weeks ago by
jandrade
• 0 • written 6.4 years ago by
Huang, Lei [BSD] - CRI
▴ 20
0
votes
0
replies
332
views
BubbleGUM for multi group comparison of gene set enrichment
RNASeqData
GeneSetEnrichment
multiGSEA
9 months ago
sonal
• 0
0
votes
1
reply
808
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
gseGO
GeneSet
clusterProfiler
GeneSetEnrichment
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
manuelsokolov
• 0
0
votes
2
replies
3.3k
views
What is the significance of "Zero Cross" in Ranked List Metric in Gene Set Enrichment Analysis ?
GSEA
GeneSetEnrichment
22 months ago
Bhavana
• 0
0
votes
1
reply
879
views
enrichment to common gene
GeneSetEnrichment
genes
genetogo
updated 23 months ago by
Basti
▴ 780 • written 23 months ago by
Noy
• 0
9
votes
13
replies
6.5k
views
GSEA many significant gene sets despite no differentially expressed genes
GSEA
GeneSetEnrichment
DifferentialExpression
updated 3 months ago by
ATpoint
★ 4.1k • written 2.1 years ago by
nhaus
▴ 30
1
vote
0
replies
1.3k
views
GSEA using clusterProfiler with non-model organism.
clusterProfiler
KEGG
GeneSetEnrichment
2.5 years ago
makrez
▴ 10
3
votes
2
replies
1.2k
views
Self-contained gene set testing with DESeq2 results
roast
DESeq2
GeneSetEnrichment
updated 3.4 years ago by
Gordon Smyth
50k • written 3.4 years ago by
prabin.dm
• 0
0
votes
1
reply
1.4k
views
Cut down genes displayed on x axis from enrichPlot's heatplot() function
clusterProfiler
GeneSetEnrichment
enrichplot
updated 3.3 years ago by
Emilia
▴ 30 • written 3.4 years ago by
saw44
• 0
0
votes
0
replies
563
views
Clusterprofiler - best practise for missing ids
ReactomePA
clusterProfiler
GeneSetEnrichment
3.5 years ago
paun_bio
• 0
1
vote
4
replies
3.0k
views
Problem retrieving graphics in clusterprofiler
software error
clusterprofiler
GO
genesetenrichment
8.0 years ago
José Luis Lavín
▴ 10
1
vote
0
replies
1.1k
views
performance of limma gene set analysis in relation to Tarca et al. (2013)
limma
genesetenrichment
updated 8.2 years ago by
Steve Lianoglou
★ 13k • written 8.2 years ago by
Aditya
▴ 160
1
vote
0
replies
1.3k
views
News:
Announcing the EnrichmentBrowser 2.0
genesetenrichment
functional enrichment
enrichmentbrowser
News
8.3 years ago
Ludwig Geistlinger
▴ 70
5
votes
7
replies
4.9k
views
Using goseq on non-model organism - how to define genome?
goseq
go
genesetenrichment
updated 8.4 years ago by
Gordon Smyth
50k • written 8.4 years ago by
Jon Bråte
▴ 250
2
votes
1
reply
1.1k
views
elim method for KEGG pathways?
KEGG
genesetenrichment
elim
updated 8.5 years ago by
James W. MacDonald
65k • written 8.5 years ago by
jacorvar
▴ 40
2
votes
2
replies
2.0k
views
Goseq supported organism (felcat5) has an error when testing
goseq
genesetenrichment
annotation
updated 8.7 years ago by
Nadia Davidson
▴ 310 • written 8.7 years ago by
xyliu00
▴ 20
8
votes
14
replies
3.8k
views
reactome.db is not updated?
genesetenrichment
pathways
reactome.db
updated 9.1 years ago by
willem.ligtenberg
▴ 150 • written 9.5 years ago by
Guangchuang Yu
★ 1.2k
1
vote
1
reply
5.2k
views
Reduce the redundancy of enriched GO terms
GO
topgo
genesetenrichment
updated 9.3 years ago by
Luo Weijun
★ 1.6k • written 9.3 years ago by
Alan Smith
▴ 150
0
votes
0
replies
1.1k
views
Using segAnglePo() for a set of genes
geneexpression
genesetenrichment
segAnglePo
9.4 years ago
Peter.Wood
• 0
0
votes
0
replies
1.7k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment
genesetenrichment
dose
gosemsim
9.5 years ago
Guangchuang Yu
★ 1.2k
0
votes
3
replies
1.8k
views
Running the GSEA algorithm
Microarray
GeneSetEnrichment
PGSEA
GSEABase
GSRI
SeqGSEA
Microarray
GeneSetEnrichment
GSRI
updated 10.1 years ago by
Steve Lianoglou
★ 13k • written 10.1 years ago by
Leif Väremo
▴ 70
23 results • Page
1 of 1
Recent ...
Replies
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Chris
• 0
Intent to delete when going home. Sorry for that!
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Gordon Smyth
50k
Please ask you own question. Inserting your own dataset into someone else's question like this is very impolite. I have already answered m…
Comment: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …
Comment: package goseq seems to be not available on the latest version of R
by
Patrycja
▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Chris
• 0
Thanks Gordon for the advice!
Votes
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
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